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Most Ensembl Genomes data is stored in MySQL relational databases and can be accessed by the Ensembl REST interface, the Perl API, Biomart or online. [5] Ensembl Genomes is an open project, and most of the code, tools, and data are available to the public. [6] Ensembl and Ensembl Genomes software uses an Apache 2.0 license [7] license.
Ensembl makes these data freely accessible to the world research community. All the data and code produced by the Ensembl project is available to download, [7] and there is also a publicly accessible database server allowing remote access. In addition, the Ensembl website provides computer-generated visual displays of much of the data.
GENCODE is a scientific project in genome research and part of the ENCODE (ENCyclopedia Of DNA Elements) scale-up project.. The GENCODE consortium was initially formed as part of the pilot phase of the ENCODE project to identify and map all protein-coding genes within the ENCODE regions (approx. 1% of Human genome). [2]
[1] [5] [6] The GeneCards database provides access to free Web resources about more than 350,000 known and predicted human genes, integrated from >150 data resources, such as HGNC, Ensembl, and NCBI. The core gene list is based on NCBI, Ensembl and approved gene symbols published by the HUGO Gene Nomenclature Committee (HGNC).
Users can select various types of identifiers such as CCDS ID, gene ID, gene symbol, nucleotide ID and protein ID to search for specific CCDS information. [1] The CCDS reports (Figure 1) are presented in a table format, providing links to specific resources, such as a history report, Entrez Gene [ 10 ] or re-query the CCDS data set.
25793 69754 Ensembl ENSG00000100225 ENSMUSG00000001786 UniProt Q9Y3I1 Q3U7U3 RefSeq (mRNA) NM_001033024 NM_001257990 NM_012179 NM_153195 NM_001310745 NM_001347151 RefSeq (protein) NP_001028196 NP_001244919 NP_036311 NP_001297674 NP_001334080 NP_694875 Location (UCSC) Chr 22: 32.47 – 32.5 Mb Chr 10: 85.86 – 85.89 Mb PubMed search Wikidata View/Edit Human View/Edit Mouse F-box only protein 7 ...
The European Nucleotide Archive (ENA) is a repository providing free and unrestricted access to annotated DNA and RNA sequences.It also stores complementary information such as experimental procedures, details of sequence assembly and other metadata related to sequencing projects. [1]
79728 233826 Ensembl ENSG00000083093 ENSMUSG00000044702 UniProt Q86YC2 Q3U0P1 RefSeq (mRNA) NM_024675 NM_001081238 NM_001289842 NM_001289843 NM_001289844 NM_001289845 NM_172744 RefSeq (protein) NP_078951 NP_001074707 NP_001276771 NP_001276772 NP_001276773 NP_001276774 Location (UCSC) Chr 16: 23.6 – 23.64 Mb Chr 7: 121.71 – 121.73 Mb PubMed search Wikidata View/Edit Human View/Edit Mouse ...